Journal Article

Ancestors 1.0: a web server for ancestral sequence reconstruction

Abdoulaye Banire Diallo, Vladimir Makarenkov and Mathieu Blanchette

in Bioinformatics

Volume 26, issue 1, pages 130-131
Published in print January 2010 | ISSN: 1367-4803
Published online October 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp600
Ancestors 1.0: a web server for ancestral sequence reconstruction

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Summary: The computational inference of ancestral genomes consists of five difficult steps: identifying syntenic regions, inferring ancestral arrangement of syntenic regions, aligning multiple sequences, reconstructing the insertion and deletion history and finally inferring substitutions. Each of these steps have received lot of attention in the past years. However, there currently exists no framework that integrates all of the different steps in an easy workflow. Here, we introduce Ancestors 1.0, a web server allowing one to easily and quickly perform the last three steps of the ancestral genome reconstruction procedure. It implements several alignment algorithms, an indel maximum likelihood solver and a context-dependent maximum likelihood substitution inference algorithm. The results presented by the server include the posterior probabilities for the last two steps of the ancestral genome reconstruction and the expected error rate of each ancestral base prediction.

Availability: The Ancestors 1.0 is available at http://ancestors.bioinfo.uqam.ca/ancestorWeb/.

Contact: diallo.abdoulaye@uqam.ca

Journal Article.  1205 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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